HEADER HYDROLASE 20-JUN-16 5GHJ TITLE CRYSTAL STRUCTURE OF HUMAN MTH1(G2K MUTANT) IN COMPLEX WITH 2-OXO-DATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: 7,8-DIHYDRO-8-OXOGUANINE TRIPHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 42-197; COMPND 5 SYNONYM: MUTT HOMOLOGUE-1,2-HYDROXY-DATP DIPHOSPHATASE,8-OXO-DGTPASE, COMPND 6 NUCLEOSIDE DIPHOSPHATE-LINKED MOIETY X MOTIF 1,NUDIX MOTIF 1; COMPND 7 EC: 3.6.1.55,3.6.1.56; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NUDT1, MTH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET8C KEYWDS ALPHA-BETA-ALPHA SANDWICH, HYDROLASE, DNA DAMAGE, DNA REPAIR, DNA KEYWDS 2 REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR T.NAKAMURA,S.WAZ,K.HIRATA,Y.NAKABEPPU,Y.YAMAGATA REVDAT 5 20-MAR-24 5GHJ 1 LINK REVDAT 4 26-FEB-20 5GHJ 1 REMARK REVDAT 3 01-MAR-17 5GHJ 1 JRNL REVDAT 2 11-JAN-17 5GHJ 1 JRNL REVDAT 1 04-JAN-17 5GHJ 0 JRNL AUTH S.WAZ,T.NAKAMURA,K.HIRATA,Y.KOGA-OGAWA,M.CHIRIFU,T.ARIMORI, JRNL AUTH 2 T.TAMADA,S.IKEMIZU,Y.NAKABEPPU,Y.YAMAGATA JRNL TITL STRUCTURAL AND KINETIC STUDIES OF THE HUMAN NUDIX HYDROLASE JRNL TITL 2 MTH1 REVEAL THE MECHANISM FOR ITS BROAD SUBSTRATE JRNL TITL 3 SPECIFICITY JRNL REF J. BIOL. CHEM. V. 292 2785 2017 JRNL REFN ESSN 1083-351X JRNL PMID 28035004 JRNL DOI 10.1074/JBC.M116.749713 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.KOGA,M.INAZATO,T.NAKAMURA,C.HASHIKAWA,M.CHIRIFU,A.MICHI, REMARK 1 AUTH 2 T.YAMASHITA,S.TOMA,A.KUNIYASU,S.IKEMIZU,Y.NAKABEPPU, REMARK 1 AUTH 3 Y.YAMAGATA REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF HUMAN MTH1 REMARK 1 TITL 2 WITH A HOMOGENEOUS N-TERMINUS. REMARK 1 REF ACTA CRYSTALLOGR. SECT. F V. 69 45 2013 REMARK 1 REF 2 STRUCT. BIOL. CRYST. COMMUN. REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 23295485 REMARK 1 DOI 10.1107/S1744309112048002 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 85229 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.176 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4261 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 37.1976 - 3.7346 1.00 2947 162 0.1526 0.1635 REMARK 3 2 3.7346 - 2.9647 1.00 2799 151 0.1386 0.1574 REMARK 3 3 2.9647 - 2.5900 1.00 2760 159 0.1568 0.1898 REMARK 3 4 2.5900 - 2.3533 1.00 2759 139 0.1542 0.1730 REMARK 3 5 2.3533 - 2.1846 1.00 2771 136 0.1435 0.1626 REMARK 3 6 2.1846 - 2.0558 1.00 2733 135 0.1310 0.1651 REMARK 3 7 2.0558 - 1.9529 1.00 2726 135 0.1272 0.1649 REMARK 3 8 1.9529 - 1.8679 1.00 2719 135 0.1298 0.1592 REMARK 3 9 1.8679 - 1.7960 1.00 2692 154 0.1350 0.1847 REMARK 3 10 1.7960 - 1.7340 1.00 2738 139 0.1283 0.1494 REMARK 3 11 1.7340 - 1.6798 1.00 2721 138 0.1274 0.1705 REMARK 3 12 1.6798 - 1.6318 1.00 2686 147 0.1243 0.1705 REMARK 3 13 1.6318 - 1.5888 1.00 2710 149 0.1217 0.1867 REMARK 3 14 1.5888 - 1.5500 1.00 2667 148 0.1225 0.1643 REMARK 3 15 1.5500 - 1.5148 1.00 2711 144 0.1220 0.1628 REMARK 3 16 1.5148 - 1.4826 1.00 2679 157 0.1303 0.1707 REMARK 3 17 1.4826 - 1.4529 1.00 2705 133 0.1274 0.2030 REMARK 3 18 1.4529 - 1.4255 1.00 2699 138 0.1373 0.1858 REMARK 3 19 1.4255 - 1.4000 1.00 2689 152 0.1437 0.2170 REMARK 3 20 1.4000 - 1.3763 1.00 2669 138 0.1450 0.2081 REMARK 3 21 1.3763 - 1.3541 1.00 2650 143 0.1567 0.2303 REMARK 3 22 1.3541 - 1.3333 1.00 2725 130 0.1553 0.1962 REMARK 3 23 1.3333 - 1.3136 1.00 2677 144 0.1616 0.2397 REMARK 3 24 1.3136 - 1.2951 1.00 2673 152 0.1608 0.1812 REMARK 3 25 1.2951 - 1.2776 1.00 2671 132 0.1731 0.2250 REMARK 3 26 1.2776 - 1.2610 1.00 2719 123 0.1753 0.2076 REMARK 3 27 1.2610 - 1.2453 1.00 2667 146 0.1779 0.2418 REMARK 3 28 1.2453 - 1.2303 0.99 2660 137 0.1911 0.2357 REMARK 3 29 1.2303 - 1.2160 0.97 2587 144 0.2149 0.2521 REMARK 3 30 1.2160 - 1.2023 0.88 2359 121 0.2246 0.2414 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.450 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 2951 REMARK 3 ANGLE : 1.167 4038 REMARK 3 CHIRALITY : 0.084 411 REMARK 3 PLANARITY : 0.008 530 REMARK 3 DIHEDRAL : 15.446 1129 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5GHJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1300000786. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-1A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85333 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CITRATE, SODIUM CACODYLATE, REMARK 280 NACL, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 23.26500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.83600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.64450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.83600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.26500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.64450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLN A 92 25.34 -147.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 524 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH B 501 DISTANCE = 7.05 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 203 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 36 O REMARK 620 2 GLU A 56 OE2 74.2 REMARK 620 3 6U4 A 201 O1B 107.0 90.7 REMARK 620 4 6U4 A 201 O2A 111.5 152.5 61.8 REMARK 620 5 HOH A 382 O 78.2 98.7 170.3 108.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 52 OE2 REMARK 620 2 6U4 A 201 O2B 100.7 REMARK 620 3 HOH A 309 O 166.8 91.9 REMARK 620 4 HOH A 322 O 81.0 83.6 96.4 REMARK 620 5 HOH A 366 O 89.0 166.8 78.0 89.1 REMARK 620 6 HOH A 383 O 84.5 97.9 97.9 165.5 91.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 203 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 6U4 A 201 O1B REMARK 620 2 6U4 A 201 O2A 87.3 REMARK 620 3 HOH A 367 O 90.5 101.7 REMARK 620 4 HOH A 378 O 80.5 162.5 91.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 36 O REMARK 620 2 GLU B 56 OE2 88.2 REMARK 620 3 6U4 B 201 O2B 118.8 116.1 REMARK 620 4 6U4 B 201 O1A 109.5 149.2 78.1 REMARK 620 5 HOH B 342 O 74.6 70.4 164.1 89.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6U4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6U4 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5GHI RELATED DB: PDB REMARK 900 RELATED ID: 5GHM RELATED DB: PDB REMARK 900 RELATED ID: 5GHN RELATED DB: PDB REMARK 900 RELATED ID: 5GHO RELATED DB: PDB REMARK 900 RELATED ID: 5GHP RELATED DB: PDB REMARK 900 RELATED ID: 5GHQ RELATED DB: PDB DBREF 5GHJ A 1 156 UNP P36639 8ODP_HUMAN 42 197 DBREF 5GHJ B 1 156 UNP P36639 8ODP_HUMAN 42 197 SEQADV 5GHJ LYS A 2 UNP P36639 GLY 43 ENGINEERED MUTATION SEQADV 5GHJ LYS B 2 UNP P36639 GLY 43 ENGINEERED MUTATION SEQRES 1 A 156 MET LYS ALA SER ARG LEU TYR THR LEU VAL LEU VAL LEU SEQRES 2 A 156 GLN PRO GLN ARG VAL LEU LEU GLY MET LYS LYS ARG GLY SEQRES 3 A 156 PHE GLY ALA GLY ARG TRP ASN GLY PHE GLY GLY LYS VAL SEQRES 4 A 156 GLN GLU GLY GLU THR ILE GLU ASP GLY ALA ARG ARG GLU SEQRES 5 A 156 LEU GLN GLU GLU SER GLY LEU THR VAL ASP ALA LEU HIS SEQRES 6 A 156 LYS VAL GLY GLN ILE VAL PHE GLU PHE VAL GLY GLU PRO SEQRES 7 A 156 GLU LEU MET ASP VAL HIS VAL PHE CYS THR ASP SER ILE SEQRES 8 A 156 GLN GLY THR PRO VAL GLU SER ASP GLU MET ARG PRO CYS SEQRES 9 A 156 TRP PHE GLN LEU ASP GLN ILE PRO PHE LYS ASP MET TRP SEQRES 10 A 156 PRO ASP ASP SER TYR TRP PHE PRO LEU LEU LEU GLN LYS SEQRES 11 A 156 LYS LYS PHE HIS GLY TYR PHE LYS PHE GLN GLY GLN ASP SEQRES 12 A 156 THR ILE LEU ASP TYR THR LEU ARG GLU VAL ASP THR VAL SEQRES 1 B 156 MET LYS ALA SER ARG LEU TYR THR LEU VAL LEU VAL LEU SEQRES 2 B 156 GLN PRO GLN ARG VAL LEU LEU GLY MET LYS LYS ARG GLY SEQRES 3 B 156 PHE GLY ALA GLY ARG TRP ASN GLY PHE GLY GLY LYS VAL SEQRES 4 B 156 GLN GLU GLY GLU THR ILE GLU ASP GLY ALA ARG ARG GLU SEQRES 5 B 156 LEU GLN GLU GLU SER GLY LEU THR VAL ASP ALA LEU HIS SEQRES 6 B 156 LYS VAL GLY GLN ILE VAL PHE GLU PHE VAL GLY GLU PRO SEQRES 7 B 156 GLU LEU MET ASP VAL HIS VAL PHE CYS THR ASP SER ILE SEQRES 8 B 156 GLN GLY THR PRO VAL GLU SER ASP GLU MET ARG PRO CYS SEQRES 9 B 156 TRP PHE GLN LEU ASP GLN ILE PRO PHE LYS ASP MET TRP SEQRES 10 B 156 PRO ASP ASP SER TYR TRP PHE PRO LEU LEU LEU GLN LYS SEQRES 11 B 156 LYS LYS PHE HIS GLY TYR PHE LYS PHE GLN GLY GLN ASP SEQRES 12 B 156 THR ILE LEU ASP TYR THR LEU ARG GLU VAL ASP THR VAL HET 6U4 A 201 31 HET NA A 202 1 HET NA A 203 2 HET 6U4 B 201 31 HET NA B 202 1 HETNAM 6U4 [[(2R,3S,5R)-5-(6-AZANYL-2-OXIDANYLIDENE-1H-PURIN-9- HETNAM 2 6U4 YL)-3-OXIDANYL-OXOLAN-2-YL]METHOXY-OXIDANYL- HETNAM 3 6U4 PHOSPHORYL] PHOSPHONO HYDROGEN PHOSPHATE HETNAM NA SODIUM ION HETSYN 6U4 2-OXO-DATP FORMUL 3 6U4 2(C10 H16 N5 O13 P3) FORMUL 4 NA 3(NA 1+) FORMUL 8 HOH *425(H2 O) HELIX 1 AA1 THR A 44 GLY A 58 1 15 HELIX 2 AA2 PRO A 112 MET A 116 5 5 HELIX 3 AA3 TRP A 117 PRO A 118 5 2 HELIX 4 AA4 ASP A 119 GLN A 129 1 11 HELIX 5 AA5 THR B 44 GLY B 58 1 15 HELIX 6 AA6 PRO B 112 MET B 116 5 5 HELIX 7 AA7 TRP B 117 PRO B 118 5 2 HELIX 8 AA8 ASP B 119 GLN B 129 1 11 SHEET 1 AA1 3 TRP A 32 ASN A 33 0 SHEET 2 AA1 3 ARG A 17 LYS A 23 -1 N GLY A 21 O ASN A 33 SHEET 3 AA1 3 MET A 101 GLN A 107 -1 O ARG A 102 N MET A 22 SHEET 1 AA2 7 TRP A 32 ASN A 33 0 SHEET 2 AA2 7 ARG A 17 LYS A 23 -1 N GLY A 21 O ASN A 33 SHEET 3 AA2 7 SER A 4 LEU A 13 -1 N VAL A 12 O LEU A 19 SHEET 4 AA2 7 LEU A 80 THR A 88 1 O ASP A 82 N ARG A 5 SHEET 5 AA2 7 HIS A 65 PHE A 74 -1 N ILE A 70 O VAL A 83 SHEET 6 AA2 7 LYS A 132 GLN A 140 1 O PHE A 139 N GLU A 73 SHEET 7 AA2 7 THR A 144 VAL A 153 -1 O ASP A 147 N LYS A 138 SHEET 1 AA3 3 TRP B 32 ASN B 33 0 SHEET 2 AA3 3 ARG B 17 LYS B 23 -1 N GLY B 21 O ASN B 33 SHEET 3 AA3 3 MET B 101 GLN B 107 -1 O CYS B 104 N LEU B 20 SHEET 1 AA4 7 TRP B 32 ASN B 33 0 SHEET 2 AA4 7 ARG B 17 LYS B 23 -1 N GLY B 21 O ASN B 33 SHEET 3 AA4 7 SER B 4 LEU B 13 -1 N VAL B 12 O LEU B 19 SHEET 4 AA4 7 LEU B 80 GLN B 92 1 O ASP B 82 N ARG B 5 SHEET 5 AA4 7 THR B 60 PHE B 74 -1 N ALA B 63 O ASP B 89 SHEET 6 AA4 7 LYS B 132 GLN B 140 1 O PHE B 139 N GLU B 73 SHEET 7 AA4 7 THR B 144 VAL B 153 -1 O THR B 144 N GLN B 140 LINK O GLY A 36 NA A NA A 203 1555 1555 2.56 LINK OE2 GLU A 52 NA NA A 202 1555 1555 2.43 LINK OE2AGLU A 56 NA A NA A 203 1555 1555 2.43 LINK O2B 6U4 A 201 NA NA A 202 1555 1555 2.42 LINK O1B 6U4 A 201 NA B NA A 203 1555 1555 2.22 LINK O1B 6U4 A 201 NA A NA A 203 1555 1555 3.16 LINK O2A 6U4 A 201 NA B NA A 203 1555 1555 2.33 LINK O2A 6U4 A 201 NA A NA A 203 1555 1555 2.95 LINK NA NA A 202 O HOH A 309 1555 1555 2.45 LINK NA NA A 202 O HOH A 322 1555 1555 2.46 LINK NA NA A 202 O HOH A 366 1555 1555 2.41 LINK NA NA A 202 O HOH A 383 1555 1555 2.23 LINK NA B NA A 203 O HOH A 367 1555 1555 2.36 LINK NA B NA A 203 O HOH A 378 1555 1555 2.52 LINK NA A NA A 203 O HOH A 382 1555 1555 2.29 LINK O GLY B 36 NA NA B 202 1555 1555 2.39 LINK OE2 GLU B 56 NA NA B 202 1555 1555 2.31 LINK O2B 6U4 B 201 NA NA B 202 1555 1555 2.67 LINK O1A 6U4 B 201 NA NA B 202 1555 1555 2.47 LINK NA NA B 202 O HOH B 342 1555 1555 2.44 SITE 1 AC1 29 TYR A 7 THR A 8 LEU A 9 ASN A 33 SITE 2 AC1 29 GLY A 36 GLY A 37 LYS A 38 PHE A 72 SITE 3 AC1 29 MET A 81 TRP A 117 ASP A 119 ASP A 120 SITE 4 AC1 29 TRP A 123 NA A 202 NA A 203 HOH A 309 SITE 5 AC1 29 HOH A 316 HOH A 318 HOH A 319 HOH A 322 SITE 6 AC1 29 HOH A 367 HOH A 370 HOH A 371 HOH A 374 SITE 7 AC1 29 HOH A 378 HOH A 397 HOH A 416 HOH A 447 SITE 8 AC1 29 HOH B 447 SITE 1 AC2 6 GLU A 52 6U4 A 201 HOH A 309 HOH A 322 SITE 2 AC2 6 HOH A 366 HOH A 383 SITE 1 AC3 6 GLY A 36 GLU A 56 6U4 A 201 HOH A 367 SITE 2 AC3 6 HOH A 378 HOH A 382 SITE 1 AC4 19 TYR B 7 THR B 8 LEU B 9 LYS B 23 SITE 2 AC4 19 ASN B 33 GLY B 36 GLY B 37 LYS B 38 SITE 3 AC4 19 PHE B 72 MET B 81 TRP B 117 ASP B 119 SITE 4 AC4 19 ASP B 120 TRP B 123 NA B 202 HOH B 305 SITE 5 AC4 19 HOH B 330 HOH B 409 HOH B 418 SITE 1 AC5 4 GLY B 36 GLU B 56 6U4 B 201 HOH B 342 CRYST1 46.530 47.289 123.672 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.021492 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021147 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008086 0.00000